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Hi,
We're implementing freesurfer and other neuroimaging applications on the High
Performance Computing center. To help more users get up to speed quickly, I'm
trying to pull together up-to-date freesurfer/freeview educational materials
into a single
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I thought some people from this list might want to attend SC20, the 2020
supercomputing conference. It looks interesting, and could be relevant to your
work.
Examples of activities at SC can be found in the previous year's program at the
SC19
websi
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Hi, I am testing a new installation of freesurfer. Two errors occurred, and I'm
hoping someone can help me troubleshoot:
First, recon-all exits with error indicating that it is unable to create a
symbolic link:
[GHS\026278@vmcntdsktp10 fs_sample1]$
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Hi, I realize this is fairly straightforward for most of you, but I am
relatively new to freesurfer and want to make sure I'm proceeding correctly
with group analysis.
We have ~35 TBI subjects and a similar number of age- and sex-matched controls,
a
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Hi,
I'm planning a freesurfer analysis of a large MRI dataset, and want to use the
"380 GPU nodes" (and other cores/nodes) on the Palmetto Cluster
(https://www.palmetto.clemson.edu/palmetto/userguide_palmetto_overview.html) to
speed up the process.
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Has anyone else tried to do recon-all with Sagittal 3D T1 post-contrast volumes?
We're getting hung in recon-all at the Talairach registration step, and I
wonder if the vascular enhancement at the pial surface might be throwing the
algorithm off. Abo
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Hi,
Running recon-all on sag T1 post-contrast MRI (for archival study) on
virtualBox with centOS7 and freesurfer 6. The virtual box runs on a windows
server and is allocated 8 processors and 16 GB memory by the windows server on
which it resides. A
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We are trying to run many subjects through recon-all in batches on an 8 core
Windows Server on which we have virtualBox running CentOS7 and freesurfer 6.
Can you tell me if this command will utilize all 8 cores effectively to process
all 8 subjects s
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In group analysis, is it better to have matched controls (1:1) or to use age,
education and other characteristics as confounds in the glm? In the latter
situation, we would control for these demographic variables in the glm and the
control group n co
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We are attempting to analyze archival MRI data obtained during routine clinical
care. Unfortunately, the standard clinical MR sequences do not include 3D
volumes. Will the freesurfer algorithm work on slice data so that each slice
could be marked wit
During the last lectures of the recent 4/2-5 course, Dr. Fischl referenced code
that would properly segment/parcellate sub-par images. If we don't have a good
3D MPRAGE or SPGR T1 image, is there a specific command I need to use for these
alternate/sub-par inputs into recon-all ? If not, when mi
Hi,
I was pleased to learn freesurfer runs with the standalone matlab runtime, and
installed this on CentOS7. It seems to be working well. I noticed that there's
also a version of spm12 that runs using this runtime, "with limitations." Two
questions:
1. Are there freesurfer limitations u
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